Multi-omics RNA-seq differential expression

Multi-omics RNA-seq differential expression analysis combines transcript-level count data from RNA sequencing with one or more additional omics layers — such as proteomics, metabolomics, epigenomics, or genomic variant data — to identify genes, proteins, or metabolites that differ systematically between biological conditions. By integrating multiple molecular levels, the pipeline captures regulatory mechanisms that transcriptomics alone cannot resolve, enabling a more complete picture of the biological processes driving observed phenotypes.